[seminarios-mlpb] Tuesday, June 12th, 13:00, Sala EA1: Luis Pedro Coelho on "Modeling Subcellular Location from Images and Other Sources of Information"
- From: Andre Martins <afm@xxxxxxxxxx>
- To: seminarios-mlpb@xxxxxxxxxxxxx
- Date: Sat, 09 Jun 2012 03:46:03 +0100
TALK ANNOUNCEMENT (note the unusual venue: EA1 instead of PA2!)
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Priberam Machine Learning Lunch Seminar
Speaker: Luis Pedro Coelho (IMM)
Venue: IST Alameda, Sala EA1 (Torre Norte)
Date: Tuesday, June 12th, 2012
Time: 13:00
Lunch will be provided
Title: Modeling Subcellular Location from Images and Other Sources of
Information
Abstract:
Subcellular location is an important property of proteins, carefully
regulated by the cell machinery. To determine subcellular location on a
proteome-wide scale, fluorescent image data is most commonly used and a
classification system is employed for analysis. These systems assign
each protein to one of a small set of predefined location classes
(typically the major organelles).
Too often, in the past, the performance of classification was evaluated
on datasets which contained multiple images of the same protein as
representative of a class. I will argue that this is overly optimistic
and generalises poorly.
On the second part of my talk, I will discuss how classification implies
a limited representation of the underlying biology as proteins are often
in multiple organelles. I will present techniques that go beyond the
case of single location assignment to fractional assignment. These
techniques were applied on a large collection of images of fluorescently
tagged mouse proteins, which included several proteins for which no
location assignment had been previously reported in the literature.
This work was performed at Carnegie Mellon University with Prof. Robert
F. Murphy and Dr. Tao Peng.
--
Bio: Luis Pedro Coelho is a PhD candidate in computational biology at
Carnegie Mellon University. His work is focused on automatic
understanding of large collections of bioimage data. Previously, at CMU,
he was involved in the Structure Literature Image Finder (SLIF) project,
a project which mined the academic literature using both the text of the
papers and the images therein. This project was one of the finalists in
the Elsevier Grand Challenge (4 out of 70 teams were present at the
final). Before coming to CMU, Luis earned a BS and an MS from Instituto
Superior Técnico, in Lisbon. His MS research was on learning from noisy
data with Bayesian networks.
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- » [seminarios-mlpb] Tuesday, June 12th, 13:00, Sala EA1: Luis Pedro Coelho on "Modeling Subcellular Location from Images and Other Sources of Information" - Andre Martins
